MmuINT0042041 @ mm10
Intron Retention
Gene
ENSMUSG00000035403 | Crb2
Description
crumbs family member 2 [Source:MGI Symbol;Acc:MGI:2679260]
Coordinates
chr2:37786439-37786857:+
Coord C1 exon
chr2:37786439-37786634
Coord A exon
chr2:37786635-37786717
Coord C2 exon
chr2:37786718-37786857
Length
83 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CTCCCGCCCGCCCACGCCAGTTT
3' ss Score
5.55
Exon sequences
Seq C1 exon
GCGTGACCTGTGAGGCCGAGGTGGACGAGTGCTCGTCAGCGCCCTGCCTGCACGGAGGCTCGTGCCTGGACGGTGTGGGTTCCTACCGCTGCGTGTGCGCGCCGGGATACGCCGGTGCGAACTGTCAGCTGGACGTGGACGAGTGCCAGAGCCAGCCGTGCGCGCACGGTGGCGTGTGTCACGACCTGGTCAACGG
Seq A exon
GTGAGCCCTTGGCGGGGTGCCCTGGCGGCGGGGAGGTGGGCTGCGGGATGTGCACGCGCTCAGCTCCCGCCCGCCCACGCCAG
Seq C2 exon
TTTCCGGTGCGACTGCGCGGACACGGGTTACGAAGGCGCGCGCTGCGAGCAGGAGGTGCTGGAGTGCGCCTCTGCGCCCTGCGCGCACAACGCGTCCTGCCTCGACGGCTTCCGGAGCTTCCGCTGCCTCTGCTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035403:ENSMUST00000050372:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=3.0),PF0000822=EGF=WD(100=47.0),PF0000822=EGF=PU(53.1=25.8)
A:
NA
C2:
PF0000822=EGF=PD(43.8=29.2),PF0000822=EGF=PU(80.6=52.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGACGGTGTGGGTTCCTA
R:
CGCCTTCGTAACCCGTGTC
Band lengths:
169-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types